Merge pull request #654 from theislab/pre-commit-ci-update-config

[pre-commit.ci] pre-commit autoupdate

.pre-commit-config.yaml

@@ -13,7 +13,7 @@ repos:
         additional_dependencies: [numpy>=1.25.0]
         files: ^src
   - repo: https://github.com/psf/black
-    rev: 24.1.1
+    rev: 24.2.0
     hooks:
       - id: black
         additional_dependencies: [toml]
@@ -63,7 +63,7 @@ repos:
       - id: doc8
   - repo: https://github.com/astral-sh/ruff-pre-commit
     # Ruff version.
-    rev: v0.1.14
+    rev: v0.2.1
     hooks:
       - id: ruff
         args: [--fix, --exit-non-zero-on-fix]

src/moscot/_types.py

@@ -8,7 +8,7 @@
 try:
     from numpy.typing import DTypeLike, NDArray
 
-    ArrayLike = NDArray[np.float_]
+    ArrayLike = NDArray[np.float64]
 except (ImportError, TypeError):
     ArrayLike = np.ndarray  # type: ignore[misc]
     DTypeLike = np.dtype  # type: ignore[misc]

src/moscot/problems/_utils.py

@@ -36,9 +36,7 @@ def handle_joint_attr(
             return xy, kwargs
 
         # if this is True we have custom cost matrix or moscot cost - in this case we have a custom cost matrix
-        if joint_attr.get("tag", None) == "cost_matrix" and (
-            len(joint_attr) == 2 or kwargs.get("attr", None) == "obsp"
-        ):
+        if joint_attr.get("tag", None) == "cost_matrix" and (len(joint_attr) == 2 or kwargs.get("attr") == "obsp"):
             joint_attr.setdefault("cost", "custom")
             joint_attr.setdefault("attr", "obsp")
             kwargs["xy_callback"] = "cost-matrix"

src/moscot/problems/cross_modality/_mixins.py

@@ -80,7 +80,7 @@ def _get_features(
             attr: Dict[str, Any],
         ) -> ArrayLike:
             data = getattr(adata, attr["attr"])
-            key = attr.get("key", None)
+            key = attr.get("key")
             return data if key is None else data[key]
 
         if self._src_attr is None: